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The crystal structure of the globular domain of sheep prion protein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1I4M PDB ENTRY 1I4M
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8.6 pH 8.60
Crystal Properties Matthews coefficient Solvent content 2.2 43.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 85.068 α = 90 b = 29.045 β = 90 c = 45.896 γ = 90
Symmetry Space Group P 21 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 165 CCD ADSC CCD 2003-06-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SRS BEAMLINE PX14.1 SRS PX14.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 2.05 19.3 93.2 0.08 6 2.5 7095
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.05 2.13 78 0.35 2 1.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1I4M 2.05 84.51 6769 326 92.4 0.227 0.222 0.2203 0.33 0.3206 RANDOM 41.69
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] -1.08 -0.63 1.71
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.627 r_dihedral_angle_3_deg 19.592 r_dihedral_angle_4_deg 16.17 r_dihedral_angle_1_deg 7.414 r_scangle_it 4.585 r_scbond_it 3.489 r_mcangle_it 1.946 r_angle_refined_deg 1.677 r_mcbond_it 1.278 r_symmetry_vdw_refined 0.366
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.627 r_dihedral_angle_3_deg 19.592 r_dihedral_angle_4_deg 16.17 r_dihedral_angle_1_deg 7.414 r_scangle_it 4.585 r_scbond_it 3.489 r_mcangle_it 1.946 r_angle_refined_deg 1.677 r_mcbond_it 1.278 r_symmetry_vdw_refined 0.366 r_xyhbond_nbd_refined 0.284 r_nbd_refined 0.23 r_symmetry_hbond_refined 0.174 r_chiral_restr 0.117 r_bond_refined_d 0.016 r_gen_planes_refined 0.008 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 883 Nucleic Acid Atoms Solvent Atoms 71 Heterogen Atoms 21
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling AMoRE phasing MOLREP phasing REFMAC refinement